groupBug-0.2.tar.gz (4.79 kB)

groupBug

Download (4.79 kB)
software
posted on 28.08.2018, 00:00 by NICHOLAS D SANDERSON

Clustering heatmap tool for kraken-style reports. Takes kraken style reports in text file format from eithr Kraken or Centrifuge (use centrifuge-kreport.pl). Produces a clustermap using seaborn of top species (default) using z scores for the heatmap and euclidean centroid clustering for the dendrograms.

This work was inspired by the excellent hclust script available for metaphlan analysis, see here https://bitbucket.org/biobakery/biobakery/wiki/metaphlan2#rst-header-create-a-heatmap-with-hclust2. And Pavian see here, https://github.com/fbreitwieser/pavian.

This work was funded by NIHR Biomedical Research Centre at Oxford University Hospitals NHS Foundation Trust and the University of Oxford.

Gitlab repository https://gitlab.com/ModernisingMedicalMicrobiology/groupBug

History

Licence

Exports